The Semantic Grid: A future e-Science infrastructure

e-Science offers a promising vision of how computer and communication technology can support and enhance the scientific process. It does this by enabling scientists to generate, analyse, share and discuss their insights, experiments and results in an effective manner. The underlying computer infrastructure that provides these facilities is commonly referred to as the Grid. At this time, there are a number of grid applications being developed and there is a whole raft of computer technologies that provide fragments of the necessary functionality. However there is currently a major gap between these endeavours and the vision of e-Science in which there is a high degree of easy-to-use and seamless automation and in which there are flexible collaborations and computations on a global scale. To bridge this practice–aspiration divide, this paper presents a research agenda whose aim is to move from the current state of the art in e-Science infrastructure, to the future infrastructure that is needed to support the full richness of the e-Science vision. Here the future e-Science research infrastructure is termed the Semantic Grid (Semantic Grid to Grid is meant to connote a similar relationship to the one that exists between the Semantic Web and the Web). In particular, we present a conceptual architecture for the Semantic Grid. This architecture adopts a service-oriented perspective in which distinct stakeholders in the scientific process, represented as software agents, provide services to one another, under various service level agreements, in various forms of marketplace. We then focus predominantly on the issues concerned with the way that knowledge is acquired and used in such environments since we believe this is the key differentiator between current grid endeavours and those envisioned for the Semantic Grid

Difficult phylogenetic questions: more data, maybe; better methods, certainly

Contradicting the prejudice that endosymbiosis is a rare phenomenon, Husník and co-workers show in BMC Biology that bacterial endosymbiosis has occured several times independently during insect evolution. Rigorous phylogenetic analyses, in particular using complex models of sequence evolution and an original site removal procedure, allow this conclusion to be established after eschewing inference artefacts that usually plague the positioning of highly divergent endosymbiont genomic sequences

Rotational dynamics of a soft filament: wrapping transition and propulsive forces

We analyze experimentally the shape of a long elastic filament rotating in a viscous liquid. We identify a continuous but sharp transition from a straight to an helical shape, resulting from the competition between viscous stresses and elastic forces. This induced helicity generates a propulsive force along the axis of rotation. In addition, we show that the shape transition is associated with an unstable branch in the force-torque relation. A linearized model of the fluid-structure interaction is proposed to account for all the features of the non-linear filament dynamics

Paleo-fluids characterization and fluid flow modelling along a regional transect in Northern United Arab Emirates

In the Northern Emirates, Jurassic and Lower Cretaceous platform carbonates of the Musandam parautochthonous units are tectonically overlain by siliciclastic units of the Hawasina-Sumeini allochthon, which derive from the former paleo-slope domain and a more distal basinal portion of the Arabian margin of the Tethys, respectively. All these tectonic units display numerous evidences of paleo-fluid circulations, accounting for dolomitisation and recrystallisation of the rock matrix (Musandam Platform units), as well as cementation of fractures. Polymict breccias of Upper Cretaceous Ausaq Formation which underlay the sole thrust of the Hawasina-Sumeini allochthon also record episodes of hydraulic fracturing, whereas fluid inclusion data indicate precipitation at high temperature in relation to paleo-fluid flow. Petrography of thin-sections (conventional and cathodoluminescence microscopic techniques) as well as fluid inclusion and stable isotopes analyses, were combined with micro-tectonic studies. These analytical data document (1) the paragenetic sequence of diagenetic products for the Musandam Platform (which constitutes a carbonate reservoir analogue) and Sumeini units of the Dibba Zone, as well as (2) the nature of the paleo-fluids circulating along fractures and the sole thrust of the Hawasina-Sumeini allochthon. The main results of this petrographic approach are qualitative, evidencing (1) the rapid and vertical transfer of hot fluids in the vicinity of the former slope to platform transition, accounting for episodes of hydrothermal dolomitisation, as well as (2) early (i. e. pre-orogenic) and late (i. e. post-orogenic) episodes of emersion of the carbonate units, accounting for additional interactions with meteoric fluids and karstification. In order to better link these diagenetic events with the overall burial, thermal and kinematic evolution of the Arabian margin, basin modelling with Ceres2D, including fluid flow and pore-fluid pressure modelling, was subsequently performed along a regional transect (D4) located in the vicinity of the samples localities and cross-cutting the Northern Oman Mountains from Dibba in the east up to the Arabian Gulf in the west. New subsurface constraints provided by deep seismic profiles were used to constrain the architecture of the cross-section, and to test various hypotheses on the lateral and vertical connection, timing and hydrodynamic behaviour of the faults. This Ceres basin modelling also provides new quantitative estimates of the paleo-fluid pathways, of the timing and velocities of the fluid transfers and of the evolution of pore-fluid pressures. Ultimately, this integration of petrographic studies on surface samples and coupled kinematic and fluid flow basin modelling provides an updated scenario for the succession of tectonically controlled episodes of fluid rock interactions, namely dolomitisation and karstification recorded in the Mesozoic platform carbonates of the Northern Emirates. © 2010 Saudi Society for Geosciences

Disrupting the dissertation: linked data, enhanced publication and algorithmic culture

This article explores how the three aspects of Striphas’ notion of algorithmic culture (information, crowds and algorithms) might influence and potentially disrupt established educational practices.  We draw on our experience of introducing semantic web and linked data technologies into higher education settings, focussing on extended student writing activities such as dissertations and projects, and drawing in particular on our experiences related to undergraduate archaeology dissertations. The potential for linked data to be incorporated into electronic texts, including academic publications, has already been described, but these accounts have highlighted opportunities to enhance research integrity and interactivity, rather than considering their potential creatively to disrupt existing academic practices. We discuss how the changing relationships between subject content and practices, teachers, learners and wider publics both in this particular algorithmic culture, and more generally, offer new opportunities; but also how the unpredictability of crowds, the variable nature and quality of data, and the often hidden power of algorithms, introduce new pedagogical challenges and opportunities

Collaborative information seeking with ant colony ranking in real-time

In this paper we propose a new ranking algorithm based on Swarm Intelligence, more specifically on the Ant Colony Optimization technique, to improve search engines’ performances and reduce the information overload by exploiting users’ collective behavior. We designed an online evaluation involving end users to test our algorithm in a real-world scenario dealing with informational queries. The development of a fully working prototype – based on the Wikipedia search engine – demonstrated promising preliminary results